Locus 5910

Sequence ID 3R_DroMel_CAF1
Location 15,555,165 – 15,555,264
Length 99
Max. P 0.644567
window9652 window9653

overview

Window 2

Location 15,555,165 – 15,555,264
Length 99
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 83.50
Mean single sequence MFE -18.84
Consensus MFE -13.15
Energy contribution -13.28
Covariance contribution 0.13
Combinations/Pair 1.15
Mean z-score -1.64
Structure conservation index 0.70
SVM decision value 0.19
SVM RNA-class probability 0.626822
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15555165 99 + 27905053
CUUCGAGCAAAUUCCUGGGCGCUCAAAUGAGCCUAGAAAUUCUGCUCUACCUAGCCAUCUAAAUCCUUCACUUACACUUACCGCAAUUCUGCGCCAAUU
....(((((((((.((((((.(......).)))))).)))).)))))..................................((((....))))...... ( -22.50)
>DroSec_CAF1 80374 99 + 1
CUUCGAGCAGAUUCCCGGUCGCCUAAAUGAGUCUAGAUAUUCUGCUCUACCUAGCCAUCUAAAUCCUUCACUUACACUUACUGCAGUUCUGAGCUAAUU
....(((((((.((..(((((......))).))..))...)))))))....((((((................................)).))))... ( -13.45)
>DroSim_CAF1 74354 99 + 1
CUUCGAGCAGAUUCCCGGGCGCCUAAAUGAGCCUAGAAAUUCUGCUCUUCCUAGCCAUCUAAAUCCUUCACUUACACUUACUUCAGUUCUGAGCUAAUU
....((((((((((..((((..(.....).)))).)))..)))))))..............................(((.((((....)))).))).. ( -19.00)
>DroYak_CAF1 78736 87 + 1
CUUCGAGCAGAUUCCCAGGCACCUAGAUGAGCCUAGAAAUUCUGUUCUACCUAGCCAUUUAAAUC------------UUACUGGAUUUCUGUGCCAAUU
....((((((((((..((((..........)))).)))..)))))))......(.(((..(((((------------(....))))))..))).).... ( -20.40)
>consensus
CUUCGAGCAGAUUCCCGGGCGCCUAAAUGAGCCUAGAAAUUCUGCUCUACCUAGCCAUCUAAAUCCUUCACUUACACUUACUGCAGUUCUGAGCCAAUU
....(((((((...(.((((.(......).)))).)....))))))).................................................... (-13.15 = -13.28 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,555,165 – 15,555,264
Length 99
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 83.50
Mean single sequence MFE -25.65
Consensus MFE -19.62
Energy contribution -19.75
Covariance contribution 0.12
Combinations/Pair 1.13
Mean z-score -1.60
Structure conservation index 0.77
SVM decision value 0.23
SVM RNA-class probability 0.644567
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15555165 99 - 27905053
AAUUGGCGCAGAAUUGCGGUAAGUGUAAGUGAAGGAUUUAGAUGGCUAGGUAGAGCAGAAUUUCUAGGCUCAUUUGAGCGCCCAGGAAUUUGCUCGAAG
..(((((((......)).....((.(((((.....))))).)).)))))...(((((((.(((((.(((.(......).))).)))))))))))).... ( -26.80)
>DroSec_CAF1 80374 99 - 1
AAUUAGCUCAGAACUGCAGUAAGUGUAAGUGAAGGAUUUAGAUGGCUAGGUAGAGCAGAAUAUCUAGACUCAUUUAGGCGACCGGGAAUCUGCUCGAAG
.....((........)).....((.(((((((....(((((((((((......)))....)))))))).))))))).))...((((......))))... ( -20.20)
>DroSim_CAF1 74354 99 - 1
AAUUAGCUCAGAACUGAAGUAAGUGUAAGUGAAGGAUUUAGAUGGCUAGGAAGAGCAGAAUUUCUAGGCUCAUUUAGGCGCCCGGGAAUCUGCUCGAAG
..((((((((....))).....((.(((((.....))))).)).)))))...(((((((.((((..(((.(......).)))..))))))))))).... ( -28.30)
>DroYak_CAF1 78736 87 - 1
AAUUGGCACAGAAAUCCAGUAA------------GAUUUAAAUGGCUAGGUAGAACAGAAUUUCUAGGCUCAUCUAGGUGCCUGGGAAUCUGCUCGAAG
..(((((.((.(((((......------------)))))...)))))))...((.((((.(((((((((.(......).))))))))))))).)).... ( -27.30)
>consensus
AAUUAGCUCAGAACUGCAGUAAGUGUAAGUGAAGGAUUUAGAUGGCUAGGUAGAGCAGAAUUUCUAGGCUCAUUUAGGCGCCCGGGAAUCUGCUCGAAG
..(((((.((................................)))))))...(((((((.(((((.(((.(......).))).)))))))))))).... (-19.62 = -19.75 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:33 2006